VIRAL ETIOLOGY ACUTE INTESTINAL INFECTIONS MOLECULAR MONITORING IN CHILDREN’S HOSPITAL

Cover Page

Cite item

Abstract

On the territory of the Russian Federation in the overall structure of acute intestinal infections the proportion of viral diarrhea among children varies from 24 to 78% of cases depending on the season. The acute viral intestinal infections etiological confirmation is performed mainly among patients of infectious hospitals. The prevalence of viral acute intestinal infections in non-infectious hospitals, including infections associated with medical care, remains unclear. Currently estimation of viral component in the acute intestinal infections overall structure mainly consists in determination of rotavirus infection prevalence excluding other pathogens. As the part of viral etiology hospital infections epidemiological surveillance in non-infections children’s hospital the study of acute viral intestinal infections etiological structure and molecular genetics characterization of identified enteric viruses is conducted. The syndrome diagnosis of acute intestinal infections cases was introduced an identification and evaluation of patients with signs of dysfunction of the gastrointestinal tract, that is not related to the underlying disease. A set of laboratory methods included identification of various intestinal pathogens DNA (RNA) by PCR-RT method; genotyping of enteric viruses using sequencing; nucleotide sequence analysis of cDNA fragments using the BLAST software package for identification of closely related strains and an online service for automatic genotyping of noroviruses by Norovirus Genotyping Tool Version 1.0. Alignment of nucleotide sequences and phylogenetic analysis was performed using the software MEGA 5.0. The obtained sequence fragments of the genome was downloaded in GenBank international database. The use of molecular genetics research methods allowed to differentiate viral pathogens of acute intestinal infections and to establish the fact of nosocomial transmission. The proportion of viral etiology acute intestinal infections in patients with clinical signs of intestinal infection, and contact persons was 43.8%. The etiological structure of intestinal virus infections was presented by noroviruses (73.2%) genotypes GII.1, GII.3, GII.4 Sydney 2012, rotaviruses (23.2%) genotypes G4P[8] and G1-IP[8], and adenovirus (1.8%) of the group F and astroviruses (1.8%) genotypes 1 and 2. Among the hospitalized children were 9 cases of viral etiology acute intestinal infections importation, and 66 of cases were of nosocomial origin. Examination of the environment revealed the presence of contamination by enteric viruses in 47.8% of cases. 

About the authors

A. V. Sergeeva

Nizhny Novgorod State Medical Academy, Nizhny Novgorod, Russian Federation

Author for correspondence.
Email: sergeeva-av2013@yandex.ru

PhD (Medicine), Senior Lecturer of the Department of Epidemiology, Head of Problematic Scientific Laboratory PCR-studies, Scientific Research Institute of Preventive Medicine, Nizhny Novgorod State Medical Academy of the Ministry of Public Health of the Russian Federation, Nizhny Novgorod, Russian Federation;

Russian Federation

L. Y. Poslova

The State Budget Hospital Nizhny Novgorod Regional Children’s Clinical Hospital, Nizhny Novgorod, Russian Federation

Email: fake@neicon.ru

PhD (Medicine), Head of Epidemiological Department of the State Budget Hospital Nizhny Novgorod Regional Children’s Clinical Hospital, Nizhny Novgorod, Russian Federation; 

Russian Federation

O. V. Kovalishena

Nizhny Novgorod State Medical Academy, Nizhny Novgorod, Russian Federation

Email: fake@neicon.ru

PhD, MD (Medicine), Professor of the Department of Epidemiology, Deputy Director of Science Scientific Research Institute of Preventive Medicine of the Nizhny Novgorod State Medical Academy of the Ministry of Public Health of the Russian Federation, Nizhny Novgorod, Russian Federation; 

Russian Federation

A. S. Blagonravova

Nizhny Novgorod State Medical Academy, Nizhny Novgorod, Russian Federation

Email: fake@neicon.ru

PhD, MD (Medicine), Professor of the Department of Epidemiology, Director of Scientific Research Institute of Preventive Medicine of the Nizhny Novgorod State Medical Academy of the Ministry of Public Health of the Russian Federation, Nizhny Novgorod, Russian Federation;


Russian Federation

N. V. Epifanova

Nizhny Novgorod Research Institute of Epidemiology and Microbiology named after Aсad. I.N. Blokhina, Nizhny Novgorod, Russian Federation

Email: fake@neicon.ru

PhD (Biology), Leading Researcher Assistant оf Laboratory of Molecular Epidemiology of Viral Infections, Nizhny Novgorod Scientific Research Institute of Epidemiology and Microbiology named after Acad. I.N. Blokhina, Nizhny Novgorod, Russian Federation;


Russian Federation

T. A. Sashina

Nizhny Novgorod Research Institute of Epidemiology and Microbiology named after Aсad. I.N. Blokhina, Nizhny Novgorod, Russian Federation

Email: fake@neicon.ru

Junior Researcher, Assistant оf Laboratory of Molecular Epidemiology of Viral Infections, Nizhny Novgorod Scientific Research Institute of Epidemiology and Microbiology named after Acad. I.N. Blokhina, Nizhny Novgorod, Russian Federation;


Russian Federation

O. V. Morozova

Nizhny Novgorod Research Institute of Epidemiology and Microbiology named after Aсad. I.N. Blokhina, Nizhny Novgorod, Russian Federation

Email: fake@neicon.ru

Junior Researcher, Assistant оf Laboratory of Molecular Epidemiology of Viral Infections, Nizhny Novgorod Scientific Research Institute of Epidemiology and Microbiology named after Acad. I.N. Blokhina, Nizhny Novgorod, Russian Federation;

Russian Federation

N. A. Novikova

Nizhny Novgorod Research Institute of Epidemiology and Microbiology named after Aсad. I.N. Blokhina, Nizhny Novgorod, Russian Federation

Email: fake@neicon.ru

PhD, MD (Biology), Professor, Head of Laboratory of Molecular Epidemiology of Viral Infections, Nizhny Novgorod Scientific Research Institute of Epidemiology and Microbiology named after Acad. I.N. Blokhina, Nizhny Novgorod, Russian Federation. 

Russian Federation

References

  1. Епифанова Н.В., Новикова Н.А., Ефимов Е.И., Парфенова О.В., Луковникова Л.Б., Фомина С.Г. Молекулярно-генетическая характеристика астровирусов, циркулирующих в Нижнем Новгороде // Журнал микробиологии, эпидемиологии и иммунобиологии. 2012. № 6. С. 32–39. [Epifanova N.V., Novikova N.A., Efimov E.I., Parfenova O.V., Lukovnikova L.B., Fomina S.G. Molecular-genetic characteristic of astroviruses circulating in Nizhny Novgorod. Zhurnal mikrobiologii, epidemiologii i immunobiologii = Journal of Microbiology, Epidemiology and Immunobiology, 2012, no. 6, pp. 32–39. (In Russ.)]
  2. Епифанова Н.В., Луковникова Л.Б., Новикова Н.А., Парфенова О.В., Фомина С.Г. Эпидемические варианты норо-вирусов генотипа GII.4 в Нижнем Новгороде в 2006–2012 гг. // Журнал микробиологии, эпидемиологии и иммуно-биологии. 2014. № 2. С. 64–72. [Epifanova N.V., Lukovnikova L.B., Novikova N.A., Parfenova O.V., Fomina S.G. Epidemic variants of genotype noroviruses GII.4 in Nizhny Novgorod in 2006–2012. Zhurnal mikrobiologii, epidemiologii i immunobiologii = Journal of Microbiology, Epidemiology and Immunobiology, 2014, no. 2, pp. 64–72. (In Russ.)]
  3. Епифанова Н.В., Луковникова Л.Б., Голицына Л.Н., Фомина С.Г., Зверев В.В., Пономарёва Н.В., Парфёнова О.В., Новиков Д.В., Волкова М.А., Новикова Н.А. Этиологическая структура вирусных кишечных инфекций у детей в Нижнем Новгороде // Медицинский альманах. 2010. № 2 (11). С. 233–236. [Epifanova N.V., Lukovnikova L.B., Golitsyna L.N., Fomina S.G., Zverev V.V., Ponomareva N.V., Parfenova O.V., Novikov D.V., Volkova M.A., Novikova N.A. Etiological structure of viral intestinal infections in children in Nizhny Novgorod. Meditsinskii al’manakh = Medical Almanac, 2010, no. 2 (11), pp. 233–236. (In Russ.)]
  4. Жираковская Е.В., Аксанова Р.Х., Горбунова М.Г., Тикунов А., Курильщиков А.М., Соколов С.Н., Нетёсов С.В.,Тикунова Н.В. Генетическое разнообразие изолятов ротавирусов группы А, выявленных в Западной Сибири в 2007–2011 гг. // Молекулярная генетика, микробиология и вирусология. 2012. № 4. C. 33–41. [Zhirakovskaia E.V., Aksanova R.Kh., Gorbunova M.G., Tikunov A., Kuril’shchikov A.M., Sokolov S.N., Netesov S.V., Tikunova N.V. Genetic diversity of group A rotavirus isolates found in Western Siberia in 2007–2011. Molekulyarnaya genetika, mikrobiologiya i virusologiya = Molecular Genetics, Microbiology and Virology, 2012, no. 4, pp. 33–41. (In Russ.)]
  5. Жираковская Е.В., Тикунов А.Ю., Курильщиков А.М., Дёмина А.В., Покровская И.В., Шеронова О.Б., Позднякова Л.Л., Нетёсов С.В., Тикунова Н.В. Этиологическая структура острых кишечных инфекций у взрослых в Новосибирске // Инфекционные болезни. 2013. Т. 11, № 2. С. 31–37. [Zhirakovskaia E.V., Tikunov A.Yu., Kuril’shchikov A.M., Demina A.V., Pokrovskaya I.V., Sheronova O.B., Pozdnyakova L.L., Netesov S.V., Tikunova N.V. Etiological structure of acute intestinal infections in adults in Novosibirsk. Infektsionnye bolezni = Infectious Diseases, 2013, vol. 11, no. 2, pp. 31–37. (In Russ.)]
  6. Новикова Н.А., Епифанова Н.В., Федорова О.Ф. G[P]-генотипирование ротавирусов с использованием полимеразной цепной реакции: Методические рекомендации. Нижний Новгород, 2007. 16 с. [Novikova N.A., Epifanova N.V., Fedorova O.F. G[P]-genotipirovanie rotavirusov s ispol’zovaniem polimeraznoi tsepnoi reaktsii: Metodicheskie rekomendatsii [G[P]-genotyping of rotaviruses using the polymerase chain reaction: Methodological recommendations]. Nizhny Novgorod, 2007. 16 р.]
  7. Новокшонов А.А., Соколова Н.В., Сахарова А.А., Бережкова Т.В. Клиническая эффективность нового энтеросорбента в комплексной терапии острых кишечных инфекций вирусной этиологии у детей // Лечащий врач. 2009. № 7. С. 78–80. [Novokshonov A.A., Sokolova N.V., Sakharova A.A., Berezhkova T.V. The clinical efficacy of a new enterosorbent in the treatment of acute intestinal infections of viral etiology in children. Lechashchii vrach = The Attending Physician, 2009, no. 7, pp. 78–80. (In Russ.)]
  8. Bull R.A., Tu E.T.V., McIver C.J., Rawlinson W.D., White P.A. Emergence of a new norovirus genotype II.4 variant associated with global outbreaks of gastroenteritis. J. Clin. Microbiol., 2006, vol. 44, no. 2, pp. 327–333. doi: 10.1128/JCM.44.2.327–333.2006
  9. De Grazia S., Platia M.A., Rotolo V., Colomba C., Martella V., Giammanco G.M. Surveillance of human astrovirus circulation in Italy 2002–2005: emergence of lineage 2c strains. Clin. Microbiol. Infect., 2011, vol. 17, no. 1, pp. 97–101. doi: 10.1111/j.1469-0691.2010.03207.x
  10. Di Stefano D.J., Kraiouchkine N., Mallette L., Maliga M., Kulnis G., Keller P.M., Clark H.F., Shaw A.R. Novel rotavirus VP7 typing assay using a one-step reverse transcriptase PCR protocol and product sequencing and utility of the assay for epidemiological studies and strain characterization, including serotype subgroup analysis. J. Clin. Microbiol., 2005, vol. 43, no. 12, pp. 5876–5880. doi: 10.1128/JCM.43.12.5876–5880.2005
  11. Gabbay Y.B., Leite J.P., Oliveira D.S., Nakamura L.S., Nunes M.R.T., Mascarenhas J., D’Arc P., Heinemann M.B., Linhares A.C. Molecular epidemiology of astrovirus type 1 in Belém, Brazil, as an agent of infantile gastroenteritis, over a period of 18 years (1982–2000): identification of two possible new lineages. Virus Res., 2007, vol. 129, no. 2, pp. 166–174. doi: 10.1016/j.virusres.2007.07.006
  12. Glass R.I., Bresee J., Jiang B., Gentsch J., Ando T., Fankhauser R., Noel J., Parashar U., Rosen B., Monroe S.S. Gastroenteritis viruses: an overview. Novartis Found Symp., 2001, pp. 5–19.
  13. Kageyama T., Kojima S., Shinohara M., Uchida K., Fukushi S., Fuminori H.B., Takeda N., Katayama K. Broadly reactive and highly sensitive assay for Norwalk-like viruses based on real-time quantitative reverse transcription-PCR. J. Clin. Microbiol., 2003, vol. 41, no. 4, pp. 1548–1557. doi: 0.1128/JCM.41.4.1548–1557.2003
  14. Kambhampati A., Koopmans M., Lopman B.A. Burden of norovirus in healthcare facilities and strategies for outbreak control. J. Hosp. Infect., 2015, vol. 89, no. 4, pp. 296–301. doi: 10.1016/j.jhin.2015.01.011
  15. Mahar J.E., Bok K., Green K.Y., Kirkwood C.D. The importance of intergenic recombination in norovirus GII.3 evolution. J. Virol., 2013, no. 87, pp. 3687–3698. doi: 10.1128/JVI.03056-12
  16. Noel J.S., Lee T.W., Kurtz J.B., Glass R.I., Monroe S.S. Typing of human astroviruses from clinical isolates by enzyme immunoassay and nucleotide sequencing. J. Clin. Microbiol., 1995, vol. 33, no. 4, pp. 797–801.
  17. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. MEG A6: Molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol., 2013, no. 30, pp. 2725–2729. doi: 10.1093/molbev/mst197
  18. Van Beek J., Ambert-Balay K., Botteldoorn N., Eden J.S., Fonager J., Hewitt J., Iritani N., Kroneman A., Vennema H., Vinjé J., White P.A., Koopmans M., on behalf of NoroNet. Indications for worldwide increased norovirus activity associated with emergence of a new variant of genotype II.4, late 2012. Eurosurveillance, 2013, vol. 18, iss. 1, pp. 8–9.

Copyright (c) 2015 Sergeeva A.V., Poslova L.Y., Kovalishena O.V., Blagonravova A.S., Epifanova N.V., Sashina T.A., Morozova O.V., Novikova N.A.

Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 International License.

This website uses cookies

You consent to our cookies if you continue to use our website.

About Cookies